SBMLFeatureToolMatrix < VCell

r22 - 28 Aug 2008 - 05:19:23 - IonMoraruYou are here: TWiki >

VCell Web > SBMLFeatureToolMatrix

Table of SBML language features and which tools support them

Tool	Algebraic Rules	Rate Rules	Assigment Rules	Events	Delay	Time	Function Definition	Initial Assignment	Units on elements	Unit definition	HasOnly SubstanceUnit	Mass units	Stoichiometry Math	Fast	Constraints	Compartment dimensions	Multiple compartments	Annotation	xhtml	MathML	SBOTerm
BioUML									read/write, doesn't check, doesn't use in simulation					read/write, doesn't use in simulation
Copasi									only model wide units, no units on global parameters	subset of units	import
JigCell					Event Delays only, no csymbol
MathSBML					Event Delays only, no csymbol				read/write, doesn't check in simulation					read/write, doesn't use in simulation	message on violation						read/write, doesn't use in simulation
ProcessDB
SBMLOdeSolveR
RoadRunner				no delayed events					-	-	-	-			message on violation	-					-
VCell
StochSim				write only					read some/write					(next version will)
SBTOOLBOX2				+ delayed events					-	-	-	-				-		-			-
Tool	Algebraic Rules	Rate Rules	Assigment Rules	Events	Delay	Time	Function Definition	Initial Assignment	Units on elements	Unit definition	HasOnly SubstanceUnit	Mass units	Stoichiometry Math	Fast	Constraints	Compartment dimensions	Multiple compartments	Annotation	xhtml	MathML	SBOTerm

In addition some tools possess some of those features, although they do not import/export them in SBML:

Tool	Events	Delay	Assigment Rules	Multiple compartments
ECell
XPP				not applicable

VCell

Copyright © by the contributing authors. All material on this collaboration platform is the property of the contributing authors.
Ideas, requests, problems regarding TWiki? Send feedback